docrev 0.8.1 → 0.8.5

package/dist/lib/merge.js

@@ -0,0 +1,603 @@
+/**
+ * Multi-reviewer merge utilities
+ * Combine feedback from multiple Word documents with conflict detection
+ *
+ * Supports true three-way merge: base document + multiple reviewer versions
+ */
+import * as fs from 'fs';
+import * as path from 'path';
+import { diffWords, diffSentences } from 'diff';
+import { extractFromWord, extractWordComments } from './import.js';
+// =============================================================================
+// Constants
+// =============================================================================
+/** Directory for revision tracking data */
+const REV_DIR = '.rev';
+/** Path to base document for three-way merge */
+const BASE_FILE = '.rev/base.docx';
+/** Path to conflict resolution state */
+const CONFLICTS_FILE = '.rev/conflicts.json';
+/** Minimum word length for similarity calculations */
+const MIN_WORD_LENGTH = 2;
+/** Similarity threshold below which changes are considered conflicts */
+const CONFLICT_SIMILARITY_THRESHOLD = 0.8;
+/** Characters of context for change attribution */
+const CHANGE_CONTEXT_SIZE = 50;
+// =============================================================================
+// Public API
+// =============================================================================
+/**
+ * Initialize .rev directory for revision tracking
+ * @param projectDir - Project directory path
+ * @throws {TypeError} If projectDir is not a string
+ */
+export function initRevDir(projectDir) {
+    if (typeof projectDir !== 'string') {
+        throw new TypeError(`projectDir must be a string, got ${typeof projectDir}`);
+    }
+    const revDir = path.join(projectDir, REV_DIR);
+    if (!fs.existsSync(revDir)) {
+        fs.mkdirSync(revDir, { recursive: true });
+    }
+}
+/**
+ * Store the base document for three-way merge
+ * Overwrites any previous base document
+ * @param projectDir - Project directory path
+ * @param docxPath - Path to the built docx to store as base
+ * @throws {TypeError} If arguments are not strings
+ * @throws {Error} If docxPath does not exist
+ */
+export function storeBaseDocument(projectDir, docxPath) {
+    if (typeof projectDir !== 'string') {
+        throw new TypeError(`projectDir must be a string, got ${typeof projectDir}`);
+    }
+    if (typeof docxPath !== 'string') {
+        throw new TypeError(`docxPath must be a string, got ${typeof docxPath}`);
+    }
+    if (!fs.existsSync(docxPath)) {
+        throw new Error(`Source document not found: ${docxPath}`);
+    }
+    initRevDir(projectDir);
+    const basePath = path.join(projectDir, BASE_FILE);
+    fs.copyFileSync(docxPath, basePath);
+}
+/**
+ * Get the base document path if it exists
+ * @param projectDir - Project directory path
+ * @returns Path to base document or null if not found
+ * @throws {TypeError} If projectDir is not a string
+ */
+export function getBaseDocument(projectDir) {
+    if (typeof projectDir !== 'string') {
+        throw new TypeError(`projectDir must be a string, got ${typeof projectDir}`);
+    }
+    const basePath = path.join(projectDir, BASE_FILE);
+    if (fs.existsSync(basePath)) {
+        return basePath;
+    }
+    return null;
+}
+/**
+ * Check if base document exists
+ * @param projectDir - Project directory path
+ * @returns True if base document exists
+ * @throws {TypeError} If projectDir is not a string
+ */
+export function hasBaseDocument(projectDir) {
+    if (typeof projectDir !== 'string') {
+        throw new TypeError(`projectDir must be a string, got ${typeof projectDir}`);
+    }
+    return fs.existsSync(path.join(projectDir, BASE_FILE));
+}
+/**
+ * Compute text similarity between two strings using Jaccard-like coefficient
+ * @param text1 - First text to compare
+ * @param text2 - Second text to compare
+ * @returns Similarity score 0-1 (0 = no similarity, 1 = identical)
+ */
+export function computeSimilarity(text1, text2) {
+    if (typeof text1 !== 'string' || typeof text2 !== 'string') {
+        return 0;
+    }
+    const words1 = new Set(text1.toLowerCase().split(/\s+/).filter(w => w.length > MIN_WORD_LENGTH));
+    const words2 = text2.toLowerCase().split(/\s+/).filter(w => w.length > MIN_WORD_LENGTH);
+    if (words1.size === 0 || words2.length === 0)
+        return 0;
+    const common = words2.filter(w => words1.has(w)).length;
+    return common / Math.max(words1.size, words2.length);
+}
+/**
+ * Check if base document matches reviewer document (similarity check)
+ */
+export async function checkBaseMatch(basePath, reviewerPath) {
+    try {
+        const { text: baseText } = await extractFromWord(basePath);
+        const { text: reviewerText } = await extractFromWord(reviewerPath);
+        const similarity = computeSimilarity(baseText, reviewerText);
+        return { matches: similarity > 0.5, similarity };
+    }
+    catch {
+        return { matches: false, similarity: 0 };
+    }
+}
+/**
+ * Extract changes from a Word document compared to original
+ * Uses sentence-level diffing for better conflict detection
+ * @param originalText - Original text (from base document)
+ * @param wordText - Text extracted from reviewer's Word doc
+ * @param reviewer - Reviewer identifier
+ */
+export function extractChanges(originalText, wordText, reviewer) {
+    const changes = [];
+    // Use sentence-level diff for better granularity
+    const diffs = diffSentences(originalText, wordText);
+    let originalPos = 0;
+    let i = 0;
+    while (i < diffs.length) {
+        const part = diffs[i];
+        if (!part)
+            break;
+        if (!part.added && !part.removed) {
+            // Unchanged
+            originalPos += part.value.length;
+            i++;
+        }
+        else if (part.removed && diffs[i + 1]?.added) {
+            // Replacement: removed followed by added
+            const nextPart = diffs[i + 1];
+            if (!nextPart)
+                break;
+            changes.push({
+                reviewer,
+                type: 'replace',
+                start: originalPos,
+                end: originalPos + part.value.length,
+                oldText: part.value,
+                newText: nextPart.value,
+            });
+            originalPos += part.value.length;
+            i += 2;
+        }
+        else if (part.removed) {
+            // Pure deletion
+            changes.push({
+                reviewer,
+                type: 'delete',
+                start: originalPos,
+                end: originalPos + part.value.length,
+                oldText: part.value,
+                newText: '',
+            });
+            originalPos += part.value.length;
+            i++;
+        }
+        else if (part.added) {
+            // Pure insertion
+            changes.push({
+                reviewer,
+                type: 'insert',
+                start: originalPos,
+                end: originalPos,
+                oldText: '',
+                newText: part.value,
+            });
+            i++;
+        }
+    }
+    return changes;
+}
+/**
+ * Extract changes using word-level diff (more fine-grained)
+ */
+export function extractChangesWordLevel(originalText, wordText, reviewer) {
+    const changes = [];
+    const diffs = diffWords(originalText, wordText);
+    let originalPos = 0;
+    let i = 0;
+    while (i < diffs.length) {
+        const part = diffs[i];
+        if (!part)
+            break;
+        if (!part.added && !part.removed) {
+            originalPos += part.value.length;
+            i++;
+        }
+        else if (part.removed && diffs[i + 1]?.added) {
+            const nextPart = diffs[i + 1];
+            if (!nextPart)
+                break;
+            changes.push({
+                reviewer,
+                type: 'replace',
+                start: originalPos,
+                end: originalPos + part.value.length,
+                oldText: part.value,
+                newText: nextPart.value,
+            });
+            originalPos += part.value.length;
+            i += 2;
+        }
+        else if (part.removed) {
+            changes.push({
+                reviewer,
+                type: 'delete',
+                start: originalPos,
+                end: originalPos + part.value.length,
+                oldText: part.value,
+                newText: '',
+            });
+            originalPos += part.value.length;
+            i++;
+        }
+        else if (part.added) {
+            changes.push({
+                reviewer,
+                type: 'insert',
+                start: originalPos,
+                end: originalPos,
+                oldText: '',
+                newText: part.value,
+            });
+            i++;
+        }
+    }
+    return changes;
+}
+/**
+ * Check if two changes overlap
+ */
+function changesOverlap(a, b) {
+    // Insertions at same point conflict
+    if (a.type === 'insert' && b.type === 'insert' && a.start === b.start) {
+        return a.newText !== b.newText; // Same insertion is not a conflict
+    }
+    // Check range overlap
+    const aStart = a.start;
+    const aEnd = a.type === 'insert' ? a.start : a.end;
+    const bStart = b.start;
+    const bEnd = b.type === 'insert' ? b.start : b.end;
+    // Ranges overlap if neither ends before the other starts
+    if (aEnd <= bStart || bEnd <= aStart) {
+        return false;
+    }
+    // They overlap - but is it a conflict?
+    // Same change from different reviewers is not a conflict
+    if (a.type === b.type && a.oldText === b.oldText && a.newText === b.newText) {
+        return false;
+    }
+    return true;
+}
+/**
+ * Detect conflicts between changes from multiple reviewers
+ * @param allChanges - Array of change arrays, one per reviewer
+ */
+export function detectConflicts(allChanges) {
+    // Flatten and sort all changes by position
+    const flat = allChanges.flat().sort((a, b) => a.start - b.start || a.end - b.end);
+    const conflicts = [];
+    const nonConflicting = [];
+    const usedIndices = new Set();
+    let conflictId = 0;
+    for (let i = 0; i < flat.length; i++) {
+        if (usedIndices.has(i))
+            continue;
+        const change = flat[i];
+        if (!change)
+            continue;
+        const conflictingChanges = [change];
+        // Find all changes that conflict with this one
+        for (let j = i + 1; j < flat.length; j++) {
+            if (usedIndices.has(j))
+                continue;
+            const other = flat[j];
+            if (!other)
+                continue;
+            // Stop if we're past the range
+            if (other.start > change.end && change.type !== 'insert')
+                break;
+            if (changesOverlap(change, other)) {
+                conflictingChanges.push(other);
+                usedIndices.add(j);
+            }
+        }
+        if (conflictingChanges.length > 1) {
+            // Multiple reviewers changed the same region
+            const start = Math.min(...conflictingChanges.map(c => c?.start ?? 0).filter(s => s !== undefined));
+            const end = Math.max(...conflictingChanges.map(c => c?.end ?? 0).filter(e => e !== undefined));
+            const firstChange = conflictingChanges[0];
+            conflicts.push({
+                id: `c${++conflictId}`,
+                start,
+                end,
+                original: firstChange?.oldText || '',
+                changes: conflictingChanges.filter((c) => c !== undefined),
+                resolved: null,
+            });
+            usedIndices.add(i);
+        }
+        else {
+            // No conflict
+            nonConflicting.push(change);
+            usedIndices.add(i);
+        }
+    }
+    // Deduplicate identical non-conflicting changes
+    const seen = new Map();
+    const dedupedNonConflicting = [];
+    for (const change of nonConflicting) {
+        const key = `${change.start}:${change.end}:${change.type}:${change.newText}`;
+        if (!seen.has(key)) {
+            seen.set(key, true);
+            dedupedNonConflicting.push(change);
+        }
+    }
+    return { conflicts, nonConflicting: dedupedNonConflicting };
+}
+/**
+ * Apply non-conflicting changes to text
+ * @param originalText
+ * @param changes - Must be sorted by position
+ */
+export function applyChanges(originalText, changes) {
+    // Sort by position descending to apply from end to start
+    const sorted = [...changes].sort((a, b) => b.start - a.start);
+    let result = originalText;
+    for (const change of sorted) {
+        if (change.type === 'insert') {
+            result = result.slice(0, change.start) + change.newText + result.slice(change.start);
+        }
+        else if (change.type === 'delete') {
+            result = result.slice(0, change.start) + result.slice(change.end);
+        }
+        else if (change.type === 'replace') {
+            result = result.slice(0, change.start) + change.newText + result.slice(change.end);
+        }
+    }
+    return result;
+}
+/**
+ * Apply changes as CriticMarkup annotations
+ */
+export function applyChangesAsAnnotations(originalText, changes) {
+    const sorted = [...changes].sort((a, b) => b.start - a.start);
+    let result = originalText;
+    for (const change of sorted) {
+        if (change.type === 'insert') {
+            const annotation = `{++${change.newText}++}`;
+            result = result.slice(0, change.start) + annotation + result.slice(change.start);
+        }
+        else if (change.type === 'delete') {
+            const annotation = `{--${change.oldText}--}`;
+            result = result.slice(0, change.start) + annotation + result.slice(change.end);
+        }
+        else if (change.type === 'replace') {
+            const annotation = `{~~${change.oldText}~>${change.newText}~~}`;
+            result = result.slice(0, change.start) + annotation + result.slice(change.end);
+        }
+    }
+    return result;
+}
+/**
+ * Apply changes as git-style conflict markers
+ */
+export function applyConflictMarkers(originalText, conflicts) {
+    // Sort by position descending
+    const sorted = [...conflicts].sort((a, b) => b.start - a.start);
+    let result = originalText;
+    for (const conflict of sorted) {
+        const markers = [];
+        markers.push(`<<<<<<< CONFLICT ${conflict.id}`);
+        for (const change of conflict.changes) {
+            markers.push(`======= ${change.reviewer}`);
+            if (change.type === 'delete') {
+                markers.push(`[DELETED: "${change.oldText}"]`);
+            }
+            else if (change.type === 'insert') {
+                markers.push(change.newText);
+            }
+            else {
+                markers.push(change.newText);
+            }
+        }
+        markers.push(`>>>>>>> END ${conflict.id}`);
+        const markerText = markers.join('\n');
+        result = result.slice(0, conflict.start) + markerText + result.slice(conflict.end);
+    }
+    return result;
+}
+/**
+ * Format a conflict for display
+ */
+export function formatConflict(conflict, originalText) {
+    const lines = [];
+    const context = 50;
+    // Show context
+    const beforeStart = Math.max(0, conflict.start - context);
+    const afterEnd = Math.min(originalText.length, conflict.end + context);
+    const before = originalText.slice(beforeStart, conflict.start).trim();
+    const original = originalText.slice(conflict.start, conflict.end);
+    const after = originalText.slice(conflict.end, afterEnd).trim();
+    if (before) {
+        lines.push(`  ...${before}`);
+    }
+    lines.push(`  [ORIGINAL]: "${original || '(insertion point)'}"`);
+    if (after) {
+        lines.push(`  ${after}...`);
+    }
+    lines.push('');
+    lines.push('  Options:');
+    conflict.changes.forEach((change, i) => {
+        const label = change.type === 'insert'
+            ? `Insert: "${change.newText.slice(0, 60)}${change.newText.length > 60 ? '...' : ''}"`
+            : change.type === 'delete'
+                ? `Delete: "${change.oldText.slice(0, 60)}${change.oldText.length > 60 ? '...' : ''}"`
+                : `Replace → "${change.newText.slice(0, 60)}${change.newText.length > 60 ? '...' : ''}"`;
+        lines.push(`    ${i + 1}. [${change.reviewer}] ${label}`);
+    });
+    return lines.join('\n');
+}
+/**
+ * Save conflicts to file for later resolution
+ */
+export function saveConflicts(projectDir, conflicts, baseDoc) {
+    const conflictsPath = path.join(projectDir, CONFLICTS_FILE);
+    const data = {
+        base: baseDoc,
+        merged: new Date().toISOString(),
+        conflicts,
+    };
+    // Ensure directory exists
+    const dir = path.dirname(conflictsPath);
+    if (!fs.existsSync(dir)) {
+        fs.mkdirSync(dir, { recursive: true });
+    }
+    fs.writeFileSync(conflictsPath, JSON.stringify(data, null, 2));
+}
+/**
+ * Load conflicts from file
+ */
+export function loadConflicts(projectDir) {
+    const conflictsPath = path.join(projectDir, CONFLICTS_FILE);
+    if (!fs.existsSync(conflictsPath)) {
+        return null;
+    }
+    return JSON.parse(fs.readFileSync(conflictsPath, 'utf-8'));
+}
+/**
+ * Clear conflicts file after resolution
+ */
+export function clearConflicts(projectDir) {
+    const conflictsPath = path.join(projectDir, CONFLICTS_FILE);
+    if (fs.existsSync(conflictsPath)) {
+        fs.unlinkSync(conflictsPath);
+    }
+}
+/**
+ * Merge multiple Word documents using three-way merge
+ */
+export async function mergeThreeWay(basePath, reviewerDocs, options = {}) {
+    const { diffLevel = 'sentence' } = options;
+    if (!fs.existsSync(basePath)) {
+        throw new Error(`Base document not found: ${basePath}`);
+    }
+    // Extract text from base document
+    const { text: baseText } = await extractFromWord(basePath);
+    // Extract changes from each reviewer relative to base
+    const allChanges = [];
+    const allComments = [];
+    for (const doc of reviewerDocs) {
+        if (!fs.existsSync(doc.path)) {
+            throw new Error(`Reviewer file not found: ${doc.path}`);
+        }
+        const { text: wordText } = await extractFromWord(doc.path);
+        // Choose diff level
+        const changes = diffLevel === 'word'
+            ? extractChangesWordLevel(baseText, wordText, doc.name)
+            : extractChanges(baseText, wordText, doc.name);
+        allChanges.push(changes);
+        // Also extract comments
+        try {
+            const comments = await extractWordComments(doc.path);
+            allComments.push(...comments.map(c => ({ ...c, reviewer: doc.name })));
+        }
+        catch (e) {
+            if (process.env.DEBUG) {
+                const error = e;
+                console.warn(`merge: Failed to extract comments:`, error.message);
+            }
+        }
+    }
+    // Detect conflicts
+    const { conflicts, nonConflicting } = detectConflicts(allChanges);
+    // Apply non-conflicting changes as annotations
+    let merged = applyChangesAsAnnotations(baseText, nonConflicting);
+    // Add comments with reviewer attribution
+    for (const comment of allComments) {
+        merged += `\n{>>${comment.reviewer}: ${comment.text}<<}`;
+    }
+    const stats = {
+        reviewers: reviewerDocs.length,
+        totalChanges: allChanges.flat().length,
+        nonConflicting: nonConflicting.length,
+        conflicts: conflicts.length,
+        comments: allComments.length,
+    };
+    return { merged, conflicts, stats, baseText, originalText: baseText };
+}
+/**
+ * Merge multiple Word documents against an original markdown file
+ * Legacy function - use mergeThreeWay for proper three-way merge
+ */
+export async function mergeReviewerDocs(originalPath, reviewerDocs, options = {}) {
+    const { autoResolve = false } = options;
+    if (!fs.existsSync(originalPath)) {
+        throw new Error(`Original file not found: ${originalPath}`);
+    }
+    const originalText = fs.readFileSync(originalPath, 'utf-8');
+    // Extract changes from each reviewer
+    const allChanges = [];
+    const allComments = [];
+    for (const doc of reviewerDocs) {
+        if (!fs.existsSync(doc.path)) {
+            throw new Error(`Reviewer file not found: ${doc.path}`);
+        }
+        const { text: wordText } = await extractFromWord(doc.path);
+        const changes = extractChanges(originalText, wordText, doc.name);
+        allChanges.push(changes);
+        // Also extract comments
+        try {
+            const comments = await extractWordComments(doc.path);
+            allComments.push(...comments.map(c => ({ ...c, reviewer: doc.name })));
+        }
+        catch (e) {
+            if (process.env.DEBUG) {
+                const error = e;
+                console.warn(`merge: Failed to extract comments:`, error.message);
+            }
+        }
+    }
+    // Detect conflicts
+    const { conflicts, nonConflicting } = detectConflicts(allChanges);
+    // Apply non-conflicting changes as annotations
+    let merged = applyChangesAsAnnotations(originalText, nonConflicting);
+    // Add comments
+    for (const comment of allComments) {
+        // Append comments at the end for now (position tracking is complex)
+        merged += `\n{>>${comment.reviewer}: ${comment.text}<<}`;
+    }
+    const stats = {
+        reviewers: reviewerDocs.length,
+        totalChanges: allChanges.flat().length,
+        nonConflicting: nonConflicting.length,
+        conflicts: conflicts.length,
+        comments: allComments.length,
+    };
+    return { merged, conflicts, stats, originalText };
+}
+/**
+ * Resolve a conflict by choosing one option
+ * @param conflict
+ * @param choice - Index of chosen change (0-based)
+ */
+export function resolveConflict(conflict, choice) {
+    if (choice < 0 || choice >= conflict.changes.length) {
+        throw new Error(`Invalid choice: ${choice}. Must be 0-${conflict.changes.length - 1}`);
+    }
+    const selectedChange = conflict.changes[choice];
+    if (!selectedChange) {
+        throw new Error(`Invalid choice: ${choice}. Change not found`);
+    }
+    conflict.resolved = selectedChange.reviewer;
+    return selectedChange;
+}
+/**
+ * Get list of unresolved conflicts
+ */
+export function getUnresolvedConflicts(projectDir) {
+    const data = loadConflicts(projectDir);
+    if (!data)
+        return [];
+    return data.conflicts.filter(c => c.resolved === null);
+}
+//# sourceMappingURL=merge.js.map

package/dist/lib/merge.js.map

@@ -0,0 +1 @@
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package/dist/lib/orcid.d.ts

@@ -0,0 +1,36 @@
+/**
+ * ORCID integration for author metadata
+ *
+ * Fetches author information from ORCID public API
+ */
+export interface OrcidProfile {
+    orcid: string;
+    name: string;
+    affiliation: string;
+    email: string;
+}
+/**
+ * Validate ORCID format (0000-0000-0000-0000)
+ */
+export declare function isValidOrcid(orcid: string): boolean;
+/**
+ * Clean ORCID input (removes URLs, whitespace)
+ */
+export declare function cleanOrcid(input: string): string;
+/**
+ * Fetch author info from ORCID public API
+ */
+export declare function fetchOrcidProfile(orcid: string): Promise<OrcidProfile>;
+/**
+ * Fetch work count from ORCID
+ */
+export declare function fetchOrcidWorkCount(orcid: string): Promise<number>;
+/**
+ * Format author for YAML
+ */
+export declare function formatAuthorYaml(profile: OrcidProfile): string;
+/**
+ * Generate ORCID badge markdown
+ */
+export declare function getOrcidBadge(orcid: string): string;
+//# sourceMappingURL=orcid.d.ts.map

package/dist/lib/orcid.d.ts.map

@@ -0,0 +1 @@
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